Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold314
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 443445
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 3
Found at i:946 original size:13 final size:13
Alignment explanation
Indices: 911--949 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
901 CACATTTTTC
*
911 CTGTATCGAGACA
1 CTGTATCGATACA
*
924 TTGTATCGATACA
1 CTGTATCGATACA
937 CTGTATCGATACA
1 CTGTATCGATACA
950 GGGTGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:3802 original size:15 final size:15
Alignment explanation
Indices: 3782--3812 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3772 ATTTCGTTTG
*
3782 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3797 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3812 G
1 G
3813 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:7893 original size:13 final size:13
Alignment explanation
Indices: 7875--7900 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7865 CAATTTTTTG
7875 TGTATCGATACAT
1 TGTATCGATACAT
7888 TGTATCGATACAT
1 TGTATCGATACAT
7901 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7985 original size:20 final size:20
Alignment explanation
Indices: 7960--8032 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
7950 CATCCTTTTT
7960 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
7980 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
8001 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
8021 ATGTATCGATAC
1 ATGTATCGATAC
8033 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:8005 original size:21 final size:21
Alignment explanation
Indices: 7939--8015 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
7929 CTGCCAAGAA
*
7939 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
7960 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
7980 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
8001 ATGTATCGATACATT
1 ATGTATCGATACATT
8016 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:8005 original size:41 final size:41
Alignment explanation
Indices: 7939--8032 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
7929 CTGCCAAGAA
7939 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
7980 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
8021 ATGTATCGATAC
1 ATGTATCGATAC
8033 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:9559 original size:84 final size:85
Alignment explanation
Indices: 9417--9586 Score: 315
Period size: 84 Copynumber: 2.0 Consensus size: 85
9407 TCCGATGGCA
*
9417 TGTAGGAATCCTATGCAATGGGCACTTTCATCAAATAGTATCAATGAAAATGACTTTTGCATAGA
1 TGTAGGAATCCTATGCAATAGGCACTTTCATCAAATAGTATCAATGAAAATGACTTTTGCATAGA
9482 TCATTCCATCATGTGTCTGT
66 TCATTCCATCATGTGTCTGT
*
9502 TGTAGGAAT-CTATGCAATAGGCACTTTCATCAAATAGTATCAATGGAAATGACTTTTGCATAGA
1 TGTAGGAATCCTATGCAATAGGCACTTTCATCAAATAGTATCAATGAAAATGACTTTTGCATAGA
9566 TCATTCCATCATGTGTCTGT
66 TCATTCCATCATGTGTCTGT
9586 T
1 T
9587 CCTCACTTCT
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
84 74 0.89
85 9 0.11
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (85 bp):
TGTAGGAATCCTATGCAATAGGCACTTTCATCAAATAGTATCAATGAAAATGACTTTTGCATAGA
TCATTCCATCATGTGTCTGT
Found at i:10180 original size:12 final size:12
Alignment explanation
Indices: 10163--10192 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10153 CAAGAGAAGC
*
10163 AAAAAAAATAAA
1 AAAAAAAACAAA
10175 AAAAAAAACAAA
1 AAAAAAAACAAA
10187 AAAAAA
1 AAAAAA
10193 GGGAATGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.93, C:0.03, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:11564 original size:62 final size:61
Alignment explanation
Indices: 11472--11820 Score: 348
Period size: 60 Copynumber: 5.7 Consensus size: 61
11462 CTTTTAATCT
* * **
11472 TTTTAGTCCTCAAAAAGCCAAGATGCCTTTTCCTTTTAAAAGCCTACATGAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAG-C-AGATGCCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACC
* * *
11535 TTTTAGTCCTTAAAGAGCATGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCA-GATGCCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACC
** ** * *
11597 ATTTTAGTCCTCAAAGAGCAGAACACCTTTT-CTTTT-AAATTCCACATAAGTTGGTGGCGCC
1 -TTTTAGTCCTCAAAGAGCAG-ATGCCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACC
* ** *
11658 TTTTAGTCTTCAAAGAGCAGGCGCCTTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAGATGCCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACC
* * * * ** *
11718 TTTTAGTCCTTAAAAAGC--ATGACGTTTTCCTTTTGAAAGCCCACAGGAGTTGGTGACACC
1 TTTTAGTCCTCAAAGAGCAGATG-CCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACC
* * * *
11778 TTTTAGTCCTCAAAGAGTAGGATGTCTTTTTCTTTTTAAAGCC
1 TTTTAGTCCTCAAAGAGCA-GATGCCTTTTCCTTTTAAAAGCC
11821 TGCACGAGTT
Statistics
Matches: 238, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
58 1 0.00
59 17 0.07
60 96 0.40
61 22 0.09
62 59 0.25
63 43 0.18
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (61 bp):
TTTTAGTCCTCAAAGAGCAGATGCCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACC
Found at i:11791 original size:120 final size:121
Alignment explanation
Indices: 11472--11794 Score: 393
Period size: 120 Copynumber: 2.6 Consensus size: 121
11462 CTTTTAATCT
*
11472 TTTTAGTCCTCAAAAAGCCAAGATGCCTTTTCCTTTTAAAAGCCTACATGAGTTGGTGGCACCTT
1 TTTTAGTCCTCAAAAAG-C-AGA--CCTTTTCCTTTT-AAAGCCCACATGAGTTGGTGGCACCTT
* * *
11537 TTAGTCCTTAAAGAGCATGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCA
61 TTAGTCCTCAAAGAGCATGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCA
* ** * *
11598 TTTTAGTCCTCAAAGAGCAGAACACCTTTT-CTTTTAAATTCCACATAAGTTGGTGGCGCCTTTT
1 TTTTAGTCCTCAAAAAGCAG---ACCTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTTTT
* *
11662 AGTCTTCAAAGAGCA-GGCGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-
63 AGTCCTCAAAGAGCATGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCA
* * * *
11718 TTTTAGTCCTTAAAAAGCATGACGTTTTCCTTTTGAAAGCCCACAGGAGTTGGTGACACCTTTTA
1 TTTTAGTCCTCAAAAAGCA-GACCTTTTCCTTTT-AAAGCCCACATGAGTTGGTGGCACCTTTTA
11783 GTCCTCAAAGAG
64 GTCCTCAAAGAG
11795 TAGGATGTCT
Statistics
Matches: 170, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
118 6 0.04
119 5 0.03
120 52 0.31
121 35 0.21
122 4 0.02
123 37 0.22
124 7 0.04
125 7 0.04
126 16 0.09
127 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (121 bp):
TTTTAGTCCTCAAAAAGCAGACCTTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGT
CCTCAAAGAGCATGACGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCA
Found at i:13940 original size:20 final size:21
Alignment explanation
Indices: 13896--13945 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
13886 TTTCTACATT
13896 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
* *
13917 TGTATCGATACATA-AGTGAA
1 TGTATCGATACAAACAGTAAA
13937 TGTATCGAT
1 TGTATCGAT
13946 GCCTAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:16677 original size:156 final size:158
Alignment explanation
Indices: 16473--16932 Score: 441
Period size: 158 Copynumber: 2.9 Consensus size: 158
16463 AATATGATTT
* * * * *
16473 TTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTCGAAGAG-ATACTTCAATCTCGGTTTTA
1 TTTTTCACCATCAGGGATACTCCAACCCTGTTA-TTTCTAAGGGAATACTCCAACCTCGGTTTTA
* * * * * * *
16537 TTTTTATAATATCAA-TTTTCTATCATTGAAAATACTCCAACCTCATTATTTTTGAGAGGATACT
65 TTTCTAAAATATCAATTTTTC-ACCATCGAAAACACTCCAACCTCATTATTTCTAAGAGGATACT
* *
16601 CAAACCCTG-CTTTATTTCT-AAATATCGA
129 CAAACCCCGACTTTATTTCTAAAACATCGA
* * ****
16629 TTTTTCACCATCAGGGATACTCCAACCCCGTTATTTCTAAGGGAATACTCCAACCCCAACCTTAT
1 TTTTTCACCATCAGGGATACTCCAACCCTGTTATTTCTAAGGGAATACTCCAACCTCGGTTTTAT
* **** * *
16694 TTCTAAAATATCGATTTTTCACCATCGGTGGCACTCTAACCTCATTATTTCTAAGAGGATACTCT
66 TTCTAAAATATCAATTTTTCACCATCGAAAACACTCCAACCTCATTATTTCTAAGAGGATACTCA
*
16759 AACCCCGATTTTATTTCTAAAACATCGA
131 AACCCCGACTTTATTTCTAAAACATCGA
* * ** * *
16787 TTTTTCACCATCAAGGATACTTCAACTTTGTTATTTCTGAGGGAATACTCCAACCTTGGTTTTAT
1 TTTTTCACCATCAGGGATACTCCAACCCTGTTATTTCTAAGGGAATACTCCAACCTCGGTTTTAT
* * * * *
16852 TTCTAAAACA-CTAATTTTTCACCATCGAAGATACTCTAACC-CTATT-GTTCTTAA-AGGGATA
66 TTCTAAAATATC-AATTTTTCACCATCGAAAACACTCCAACCTC-ATTATTTC-TAAGA-GGATA
* *
16913 CTCCAACCCCGATTTTATTT
127 CTCAAACCCCGACTTTATTT
16933 TCAAAATATT
Statistics
Matches: 248, Mismatches: 48, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
155 8 0.03
156 96 0.39
157 20 0.08
158 124 0.50
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (158 bp):
TTTTTCACCATCAGGGATACTCCAACCCTGTTATTTCTAAGGGAATACTCCAACCTCGGTTTTAT
TTCTAAAATATCAATTTTTCACCATCGAAAACACTCCAACCTCATTATTTCTAAGAGGATACTCA
AACCCCGACTTTATTTCTAAAACATCGA
Found at i:16821 original size:79 final size:79
Alignment explanation
Indices: 16575--16971 Score: 318
Period size: 79 Copynumber: 5.1 Consensus size: 79
16565 AAAATACTCC
* * * * * *
16575 AACCTCATTATTTTTGAGAGGATACTCAAACCCTG-CTTTATTTCT-AAATATCGATTTTTCACC
1 AACCTCGTTATTTCTAAG-GGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACC
* *
16638 ATCAGGGATAC-TCC
65 ATCAAGGATACTTCT
* * **
16652 AACCCCGTTATTTCTAAGGGAATACTCCAACCCCAACCTTATTTCTAAAATATCGATTTTTCACC
1 AACCTCGTTATTTCTAAGGG-ATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACC
* **
16717 ATC-GGTGGCAC-TCT
65 ATCAAG-GATACTTCT
* * *
16731 AACCTCATTATTTCTAAGAGGATACTCTAACCCCGATTTTATTTCTAAAACATCGATTTTTCACC
1 AACCTCGTTATTTCTAAG-GGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACC
16796 ATCAAGGATACTTC-
65 ATCAAGGATACTTCT
* * * ** * * *
16810 AACTTTGTTATTTCTGAGGGAATACTCCAACCTTGGTTTTATTTCTAAAACA-CTAATTTTTCAC
1 AACCTCGTTATTTCTAAGGG-ATACTCCAACCCCGATTTTATTTCTAAAATATC-GATTTTTCAC
16874 CATCGAA-GATAC-TCT
64 CATC-AAGGATACTTCT
* *
16889 AACC-C--TATTGTTCTTAAAGGGATACTCCAACCCCGATTTTATTT-TCAAAATATTGACTTTT
1 AACCTCGTTA-T-TTC-T-AAGGGATACTCCAACCCCGATTTTATTTCT-AAAATATCGATTTTT
* *
16950 CACTATTAAGGATAC-TCT
61 CACCATCAAGGATACTTCT
16968 AACC
1 AACC
16972 GTATTTTTAT
Statistics
Matches: 260, Mismatches: 42, Indels: 34
0.77 0.12 0.10
Matches are distributed among these distances:
76 4 0.02
77 26 0.10
78 22 0.08
79 197 0.76
80 11 0.04
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
AACCTCGTTATTTCTAAGGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCA
TCAAGGATACTTCT
Found at i:22467 original size:13 final size:14
Alignment explanation
Indices: 22449--22478 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22439 CTTTAAATCG
22449 AGAAAA-GCTCAAA
1 AGAAAAGGCTCAAA
22462 AGAAAAGGCTCAAA
1 AGAAAAGGCTCAAA
22476 AGA
1 AGA
22479 GAATCAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.60, C:0.13, G:0.20, T:0.07
Consensus pattern (14 bp):
AGAAAAGGCTCAAA
Found at i:27966 original size:35 final size:35
Alignment explanation
Indices: 27920--28660 Score: 656
Period size: 35 Copynumber: 21.4 Consensus size: 35
27910 TCTTACCAAA
* * * *
27920 CAAACCCTTTTCATCATTGTTTGGCTATATCTAGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
*
27955 CAAACTTTTTTCATCATCGTTTGGCTGTATCTGGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * *
27990 CAAACTCTTTTCATCATCATTTGGCTGCATTTGGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * * *
28025 CAAAATCTTTTCATCATTGTTTGGCTATATCTTGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * * * * *
28060 TAAACTCCTTTCATCATCATTTGACTGTATTTAGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* *
28095 CAAACTCTTTTCATCATTGTTTGGCTGCATCTGGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * * *
28130 CAAACTC-TTTCTATCATCATTTAGTTGTTTCTGGT
1 CAAACTCTTTTC-ATCATCGTTTGGCTGTATCTGGT
* * * *
28165 CAAACTATTTTCATCATCGTTTGGTTGCATCTAGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * * * * *
28200 CAAATTCTTTTCATCATCATTTAGTTATATATGGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
*
28235 CAAACTCTTTTCATCATC-----G-T-TATCTAGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
*
28263 CAAACTCTTTTCATCATCGTTTGGCTGCATCTGGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * * * * * *
28298 CAAACTGTTTTCATCATTGTTCGACTATATCCGAT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * * * * *
28333 CAAACTATTTTAATTATCATTTAGCTGTATCTAGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * * * *
28368 CAAACTCTTTTCATCATCATTTAGTTGTATTTGAT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* ** * *
28403 CAAACTCTTTTTATCATATTTTGGCTGTATTTAGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* **
28438 CAAACTCTTTTCATCATCATTTGGCCATATCTGGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * *
28473 CAAACTCATTTCATCATCATTTGG-TCGTATATGGT
1 CAAACTCTTTTCATCATCGTTTGGCT-GTATCTGGT
**
28508 CAAACTCTTTTCATCATCGTTTGGCCATATCTGGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * * * **
28543 TAGACTTTTTTCATCATCGTTTGGTTGTATCTAAT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * * * *
28578 C-AACTCTTCTCGTCATCGTTTGGTTGTATTTGTT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
* * *
28612 CAAACTCTTTTCATCATTGTTTGGTTGTATCTAGT
1 CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
*
28647 CAAACCCTTTTCAT
1 CAAACTCTTTTCAT
28661 TCCCAGTTGA
Statistics
Matches: 563, Mismatches: 131, Indels: 24
0.78 0.18 0.03
Matches are distributed among these distances:
28 24 0.04
29 1 0.00
30 1 0.00
33 1 0.00
34 32 0.06
35 500 0.89
36 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.45
Consensus pattern (35 bp):
CAAACTCTTTTCATCATCGTTTGGCTGTATCTGGT
Found at i:30229 original size:167 final size:167
Alignment explanation
Indices: 29929--30416 Score: 562
Period size: 167 Copynumber: 2.9 Consensus size: 167
29919 TGATTTTCTT
* * * * ** *
29929 TTAAAATTCTTCTTGTTT-TCAAAATACAGAGTTTTTTTCTCCAT-AAT-TTTTTTAGGAGGA-T
1 TTAAAATT-TTCTTGTTTCT-AAAATACAGAGTTTTCTACTCCGTAAATACTTTCAAAG-GGATT
* * * *
29990 TTTCATTGTTTTTTAATTTTT-AAATTTATCAAATATTATTATTTAATTCATAATAAATTAGTTT
63 TTTC-TTGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATAAGTTT
*
30054 TCAAAAATTTATTCATTTTCATAAGTTTTTTATTTTTTTCC
127 TCAAAAATTCATTCATTTTCATAAGTTTTTTATTTTTTTCC
* * *
30095 TT-GAATTTTTTATGTTT-TCAAAATACAGAGTTTTCTACTTCGTAAATACTTTCAAAGGGATTT
1 TTAAAATTTTCT-TGTTTCT-AAAATACAGAGTTTTCTACTCCGTAAATACTTTCAAAGGGATTT
* *
30158 TTCTTGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATAATTTTTT
64 TTCTTGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATAAGTTTTC
*
30223 AAAAATTCATTCATTTTCATGAGTTTTTTATTTTTTTCC
129 AAAAATTCATTCATTTTCATAAGTTTTTTATTTTTTTCC
* * *
30262 TTAAAATTTTCTTGTTTCTAAAATACGGAGTTTTCTACTCCGTAAATATTTTCGAAGGGATTTTT
1 TTAAAATTTTCTTGTTTCTAAAATACAGAGTTTTCTACTCCGTAAATACTTTCAAAGGGATTTTT
** * * *
30327 CTT-AGTTTTTAATTTTTAAAATTCATTGAATATTATTATTTAATTTC-TATTAAATCAGTTTTG
66 CTTGA-TTTTTAATTTTTAAAATTCATCAAATATTATTATTT-ATTTCATAATAAATAAGTTTTC
* * * * *
30390 GAAAACTAATTTATTTTCATGAGTTTT
129 AAAAATTCATTCATTTTCATAAGTTTT
30417 GAATTTCTTC
Statistics
Matches: 279, Mismatches: 34, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
164 3 0.01
165 31 0.11
166 24 0.09
167 208 0.75
168 13 0.05
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.53
Consensus pattern (167 bp):
TTAAAATTTTCTTGTTTCTAAAATACAGAGTTTTCTACTCCGTAAATACTTTCAAAGGGATTTTT
CTTGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATAAGTTTTCAA
AAATTCATTCATTTTCATAAGTTTTTTATTTTTTTCC
Found at i:31999 original size:148 final size:142
Alignment explanation
Indices: 31811--32426 Score: 659
Period size: 134 Copynumber: 4.4 Consensus size: 142
31801 TAGGTATAAA
* *
31811 TTTT-GTATCTTTTCA-GTTCTT-CATTAAGGTATGAAATGAATTTTTTCAAAAATTAAAAAAAG
1 TTTTCGTATCTTTTTAGGTT-TTCCATTAAGGTACGAAATGAA-TTTTTC-AAAATT-AAAAAA-
* * *
31873 TTAAATTAAAAAAATTATTATCTTAATTTTTCAAGATTTCGAATATTCATATGGTTTTTTGTAGG
61 TTAAA-T--AAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCTGTAGG
31938 GGTATAAAAATCTTCAAAAC
123 GGTATAAAAATCTTCAAAAC
*
31958 TTTTCGTATCTTTTTAGG-TTTCCATTAAAGTACGAAATGAATTTTTCAAAAATTAAAAAAATTA
1 TTTTCGTATCTTTTTAGGTTTTCCATTAAGGTACGAAATGAATTTTTC-AAAATT----AAA--A
* * * *
32022 AATTAAATAAAAATTATTATCATAATTTTTCAAAATTTTTAATATTCTTATGGTTTT-TCGTAGG
59 AATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCT-GTAGG
32086 GGTATAAAAATCTTCAAAAC
123 GGTATAAAAATCTTCAAAAC
*
32106 TTTTCGTAT-TTTTTCGGTTTTCCATTAAGGTACGAAATGAA--TTT-----TTAAAAAATTAAA
1 TTTTCGTATCTTTTTAGGTTTTCCATTAAGGTACGAAATGAATTTTTCAAAATTAAAAAATTAAA
* *
32163 TAAAAATTATGATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCTGTA-GGGTAATAG
66 TAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCTGTAGGGGT-ATAA
* *
32227 AAATATTCAAAAT
130 AAATCTTCAAAAC
* *
32240 TTTTTGTATCTTTTT-GGTTTTCCATTAAGGTACGAAATAAATTTTTC-------AAAAATTAAA
1 TTTTCGTATCTTTTTAGGTTTTCCATTAAGGTACGAAATGAATTTTTCAAAATTAAAAAATTAAA
* * * *
32297 TAAAAATTATCATCTTAATTTTTCAAGATTTCTAATATTCCTATGATTTTCTGCAGGGGTATAGA
66 TAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCTGTAGGGGTATAAA
*
32362 AATCTTTAAAAC
131 AATCTTCAAAAC
* * * * *
32374 TTTTCATATC-TTTTCGGCTTTCCATTAATGTACAAAATG-ATATTTTCAAAATT
1 TTTTCGTATCTTTTTAGGTTTTCCATTAAGGTACGAAATGAAT-TTTTCAAAATT
32427 TACAACTTTA
Statistics
Matches: 412, Mismatches: 32, Indels: 57
0.82 0.06 0.11
Matches are distributed among these distances:
133 10 0.02
134 212 0.51
135 10 0.02
136 6 0.01
140 2 0.00
146 3 0.01
147 27 0.07
148 128 0.31
149 1 0.00
150 5 0.01
151 5 0.01
152 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (142 bp):
TTTTCGTATCTTTTTAGGTTTTCCATTAAGGTACGAAATGAATTTTTCAAAATTAAAAAATTAAA
TAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCTGTAGGGGTATAAA
AATCTTCAAAAC
Found at i:35924 original size:13 final size:12
Alignment explanation
Indices: 35883--35936 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 12
35873 TTCATTATAA
35883 AATAA-ATAAAT
1 AATAATATAAAT
* *
35894 ATTAATATAAAA
1 AATAATATAAAT
35906 ATATAATTATAAAT
1 A-ATAA-TATAAAT
35920 AATAAATATAAAT
1 AAT-AATATAAAT
35933 AATA
1 AATA
35937 TGAACGAGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
11 4 0.11
12 7 0.20
13 15 0.43
14 9 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:35928 original size:19 final size:20
Alignment explanation
Indices: 35883--35930 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
35873 TTCATTATAA
35883 AATAAATA-AATATTAATAT
1 AATAAATATAATATTAATAT
35902 AA-AAATATAAT-TATAA-AT
1 AATAAATATAATAT-TAATAT
35920 AATAAATATAA
1 AATAAATATAA
35931 ATAATATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAATATAATATTAATAT
Found at i:36185 original size:16 final size:16
Alignment explanation
Indices: 36164--36194 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36154 GATGAAACTG
*
36164 CTAAAAAATCAAAAAC
1 CTAAAAAACCAAAAAC
36180 CTAAAAAACCAAAAA
1 CTAAAAAACCAAAAA
36195 AATACTACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.19, G:0.00, T:0.10
Consensus pattern (16 bp):
CTAAAAAACCAAAAAC
Found at i:42576 original size:29 final size:26
Alignment explanation
Indices: 42544--42606 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 26
42534 ATAATAATTT
*
42544 TTATATATTATTTTCTTTTATATTAAATA
1 TTATATATTATATT-TTTTAT-TTAAA-A
*
42573 TTATATATAATATTTTTTATTTAAAA
1 TTATATATTATATTTTTTATTTAAAA
42599 TTA-ATATT
1 TTATATATT
42607 TAAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 4 0.13
26 4 0.13
27 5 0.16
28 6 0.19
29 12 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTATATATTATATTTTTTATTTAAAA
Found at i:43933 original size:15 final size:15
Alignment explanation
Indices: 43913--43943 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43903 TTATGACATA
*
43913 ATAAAATAGATAAAT
1 ATAAAATAAATAAAT
43928 ATAAAATAAATAAAT
1 ATAAAATAAATAAAT
43943 A
1 A
43944 ATTTATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
ATAAAATAAATAAAT
Found at i:46920 original size:36 final size:35
Alignment explanation
Indices: 46873--46949 Score: 118
Period size: 36 Copynumber: 2.2 Consensus size: 35
46863 AACATGTTTA
*
46873 ATTTTTTTTTTTAATTGGCCGACGATCATCTTGCC
1 ATTTTTTTTTTTAATTGGCCGACGATCATCTTACC
* *
46908 ATTTTTTGTTTTTTATTGGCCGACGATCTTCTTACC
1 ATTTTTT-TTTTTAATTGGCCGACGATCATCTTACC
46944 ATTTTT
1 ATTTTT
46950 GTTAAACCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 7 0.18
36 31 0.82
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (35 bp):
ATTTTTTTTTTTAATTGGCCGACGATCATCTTACC
Found at i:50273 original size:20 final size:19
Alignment explanation
Indices: 50228--50280 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
50218 CTGCTAGTTT
*
50228 TATGTATCGATACAATGAA
1 TATGTATCGATACAAAGAA
**
50247 TATGTATCGATACAAAGCT
1 TATGTATCGATACAAAGAA
50266 TAATGTATCGATACA
1 T-ATGTATCGATACA
50281 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (19 bp):
TATGTATCGATACAAAGAA
Found at i:52980 original size:21 final size:21
Alignment explanation
Indices: 52950--52989 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52940 ATATTTAACC
* *
52950 ACAAATTCATCCAAAATCAAG
1 ACAAAATCATCAAAAATCAAG
52971 ACAAAATCATCAAAAATCA
1 ACAAAATCATCAAAAATCA
52990 CTACATCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.23, G:0.03, T:0.17
Consensus pattern (21 bp):
ACAAAATCATCAAAAATCAAG
Found at i:55105 original size:22 final size:21
Alignment explanation
Indices: 55080--55123 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
55070 AATTTTGAAT
*
55080 TTCAATAATTTGTATCGATACA
1 TTCAATAA-ATGTATCGATACA
*
55102 TTCAGTAAATGTATCGATACA
1 TTCAATAAATGTATCGATACA
55123 T
1 T
55124 AAGTTTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:55135 original size:19 final size:21
Alignment explanation
Indices: 55087--55141 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
55077 AATTTCAATA
*
55087 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
55108 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
55128 -TTTGTATCGATACA
1 ATTTGTATCGATACA
55142 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:55190 original size:13 final size:13
Alignment explanation
Indices: 55172--55236 Score: 103
Period size: 13 Copynumber: 5.0 Consensus size: 13
55162 GCCAAGGAAA
55172 TGTATCGATACAT
1 TGTATCGATACAT
*
55185 TGTATCGATATAT
1 TGTATCGATACAT
55198 TGTATCGATACAT
1 TGTATCGATACAT
*
55211 TGTATCGATATAT
1 TGTATCGATACAT
*
55224 TATATCGATACAT
1 TGTATCGATACAT
55237 CGATCTTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55207 original size:26 final size:26
Alignment explanation
Indices: 55172--55236 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
55162 GCCAAGGAAA
55172 TGTATCGATACATTGTATCGATATAT
1 TGTATCGATACATTGTATCGATATAT
55198 TGTATCGATACATTGTATCGATATAT
1 TGTATCGATACATTGTATCGATATAT
*
55224 TATATCGATACAT
1 TGTATCGATACAT
55237 CGATCTTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (26 bp):
TGTATCGATACATTGTATCGATATAT
Found at i:57667 original size:52 final size:52
Alignment explanation
Indices: 57593--57729 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 52
57583 TTAAGTTTCT
* * * *
57593 CAATTGTT-CATAATCGGAGATACTCTAACCTCGGTTTTATTTTC-AAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCTCGATTTTATTTCCAAAAACAC
*
57644 CAATTTTCCTTTAATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCT-CGATTTTATTTCCAAAAACAC
* * *
57697 CAATTTTTCACAATCGAGGATACTCCAACCTCG
1 CAATTTTCCATAATCGGGGATACTCCAACCTCG
57730 TTATTTCATC
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
50 2 0.03
51 8 0.11
52 45 0.62
53 17 0.24
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (52 bp):
CAATTTTCCATAATCGGGGATACTCCAACCTCGATTTTATTTCCAAAAACAC
Found at i:57797 original size:51 final size:51
Alignment explanation
Indices: 57737--57959 Score: 250
Period size: 52 Copynumber: 4.4 Consensus size: 51
57727 TCGTTATTTC
** * *** * *
57737 ATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACA
* *
57788 ATCGGGGATACTCCAA-CCCGATTTTATTTCTAAAACACTAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACA
* * * **
57838 ATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTC-ACA
** *
57890 ATCGGGGATACTCCAACTTCGATTTTATTTCCAAAAACATCAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTTCACA
*
57942 ATCGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
57960 TCATTATTTC
Statistics
Matches: 144, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
50 42 0.29
51 42 0.29
52 46 0.32
53 14 0.10
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACA
Found at i:57978 original size:28 final size:28
Alignment explanation
Indices: 57942--58013 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
57932 ATTTTTCACA
* *
57942 ATCGAGGATACTCCAACCTCATTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
*
57970 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
***
57998 CGAGGGGATACTCCAA
1 ATCGGGGATACTCCAA
58014 TCCTGATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATTTC
Found at i:58084 original size:107 final size:108
Alignment explanation
Indices: 57893--58102 Score: 284
Period size: 107 Copynumber: 2.0 Consensus size: 108
57883 TCCTTTAATC
* *
57893 GGGGATACTCCAACTTCGATTTTATTTCCAAAAACATCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAAACATCAATTTTTCACAACCGAGGATACTCCAA
* *
57958 CCTCATTATTTCATCGGGGATACTCCAACCCCGTTATTTCCGA
66 CCCCATTATTTCATAGGGGATACTCCAACCCCGTTATTTCCGA
** * *
58001 GGGGATACTCCAATCCT-GATTTTATTT-CTTAATCATCGATTTTTCACAACC-AGGGATACTCC
1 GGGGATACTCCAA-CCTCGATTTTATTTCCAAAAACATCAATTTTTCACAACCGA-GGATACTCC
*
58063 AACCCCGTTATTTTCA-AGGGGATACTCCAACCCCGTTATT
64 AACCCCATTA-TTTCATAGGGGATACTCCAACCCCGTTATT
58103 ATCTCCAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
106 1 0.01
107 59 0.66
108 28 0.31
109 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (108 bp):
GGGGATACTCCAACCTCGATTTTATTTCCAAAAACATCAATTTTTCACAACCGAGGATACTCCAA
CCCCATTATTTCATAGGGGATACTCCAACCCCGTTATTTCCGA
Found at i:59191 original size:13 final size:13
Alignment explanation
Indices: 59173--59197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59163 CAAAAAATGT
59173 TGTATCGATACAA
1 TGTATCGATACAA
59186 TGTATCGATACA
1 TGTATCGATACA
59198 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:59278 original size:13 final size:13
Alignment explanation
Indices: 59260--59284 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59250 ATTACTCACA
59260 TGTATCGATACAT
1 TGTATCGATACAT
59273 TGTATCGATACA
1 TGTATCGATACA
59285 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:59349 original size:52 final size:52
Alignment explanation
Indices: 59293--59413 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
59283 CACTGATCTT
*
59293 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
59345 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
59397 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
59414 TAACTCTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:66335 original size:7 final size:7
Alignment explanation
Indices: 66323--66368 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
66313 AAAAGTAAAC
66323 ACAAAAA
1 ACAAAAA
66330 AC--AAA
1 ACAAAAA
66335 A-AAAAA
1 ACAAAAA
66341 A-AAAAA
1 ACAAAAA
66347 ACAAAAA
1 ACAAAAA
*
66354 ACAACAA
1 ACAAAAA
66361 ACAAAAA
1 ACAAAAA
66368 A
1 A
66369 AAAGTGCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 4 0.12
6 10 0.29
7 20 0.59
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (7 bp):
ACAAAAA
Found at i:66350 original size:24 final size:24
Alignment explanation
Indices: 66323--66371 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
66313 AAAAGTAAAC
66323 ACAAAAAACAAAAAAAAAAAAAAA
1 ACAAAAAACAAAAAAAAAAAAAAA
* *
66347 ACAAAAAACAACAAACAAAAAAAA
1 ACAAAAAACAAAAAAAAAAAAAAA
66371 A
1 A
66372 GTGCAAAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (24 bp):
ACAAAAAACAAAAAAAAAAAAAAA
Found at i:66631 original size:16 final size:16
Alignment explanation
Indices: 66610--66648 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
66600 TGTTCTTTTC
*
66610 CAAAAAAGAAACAAAA
1 CAAAAAAGAAAAAAAA
66626 CAAAAAAGAAAAAAAA
1 CAAAAAAGAAAAAAAA
*
66642 GAAAAAA
1 CAAAAAA
66649 AAGAGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAA
Found at i:66640 original size:10 final size:9
Alignment explanation
Indices: 66627--66652 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
66617 GAAACAAAAC
66627 AAAAAAGAA
1 AAAAAAGAA
66636 AAAAAAGAA
1 AAAAAAGAA
66645 AAAAAAGA
1 AAAAAAGA
66653 GGAAAAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:67609 original size:31 final size:31
Alignment explanation
Indices: 67574--67709 Score: 145
Period size: 31 Copynumber: 4.5 Consensus size: 31
67564 TCTCAATATT
*
67574 AAAGTCCACGACTAAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
67605 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * *
67636 AAAGTCCACAACTCCGTGGC-A-CCCTT-T-
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * * *
67663 TAAGTCCACGACTCAGTGGCACTCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCAATCTCTT-C-TC
67696 AAAGTCCACGACTC
1 AAAGTCCACGACTC
67710 CATGGCACTC
Statistics
Matches: 86, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
27 17 0.20
28 1 0.01
29 6 0.07
30 1 0.01
31 47 0.55
32 1 0.01
33 13 0.15
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:67676 original size:27 final size:27
Alignment explanation
Indices: 67637--67690 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
67627 TCTCTGCTCA
*
67637 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCAGTGGCACCCTTTT
* *
67664 AAGTCCACGACTCAGTGGCACTCTTTT
1 AAGTCCACAACTCAGTGGCACCCTTTT
67691 CCTTTAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCAGTGGCACCCTTTT
Found at i:67701 original size:33 final size:33
Alignment explanation
Indices: 67658--68298 Score: 628
Period size: 33 Copynumber: 19.0 Consensus size: 33
67648 TCCGTGGCAC
* * * *
67658 CCTTTTAAGTCCACGACTCAGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* * *
67691 CCTTTAAAGTCCACGACTCCATGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
67724 CCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
67757 CCTTCT-AAGCCCACAACTACGTGGCACTCTTTT
1 CCTT-TAAAGCCCACAACTCCGTGGCACTCTTTT
67790 CCTTCT-AAGCCCACAACTCCGTGGCAC-CTTTTT
1 CCTT-TAAAGCCCACAACTCCGTGGCACTC-TTTT
* *
67823 CTTTTTAAAGCCCACAACTCCGTGGCACTATTTTT
1 C-CTTTAAAGCCCACAACTCCGTGGCACT-CTTTT
67858 CCCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT
1 -CC--TTTAAAGCCCACAACTCCGTGGCACTCTT-TT
* *
67894 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTT
1 CCTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
* * * *
67928 CATCTTAAAGTCCACAACTCTGTGGCACACTTTTT
1 CCT-TTAAAGCCCACAACTCCGTGGCACTC-TTTT
*
67963 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 C-CTTTAAAGCCCACAACTCCGTGGCACTC-TTTT
67998 CCCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTTT
1 -CC--TTTAAAGCCCACAACTCCGTGGCA-C-TCTTTT
68036 CCTTCT-AAGCCCACAACTCCGTGGCA--C----
1 CCTT-TAAAGCCCACAACTCCGTGGCACTCTTTT
* * * *
68063 CCTTTTAAGTCCACGACTCAGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* * *
68096 CCTTTAAAGTCCACGACTCTGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
68129 CCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
68162 CCTTCT-AAGCCCACAACTCCGTGGCACTTTTTTT
1 CCTT-TAAAGCCCACAACTCCGTGGCAC-TCTTTT
68196 CCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTTTT
1 CCTT-TAAAGCCCACAACTCCGTGGCACTC----TTTT
*
68233 CCTTTTTAAAGCCCACAACTCTGTGGCAC-CTTGTT
1 CC--TTTAAAGCCCACAACTCCGTGGCACTCTT-TT
* * *
68268 CCTTTTAAGTCCACAACTTCGTGGCA-TCTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTT
68299 CACCCTCTCT
Statistics
Matches: 528, Mismatches: 41, Indels: 79
0.81 0.06 0.12
Matches are distributed among these distances:
26 1 0.00
27 21 0.04
29 1 0.00
31 1 0.00
32 2 0.00
33 233 0.44
34 105 0.20
35 70 0.13
36 6 0.01
37 57 0.11
38 7 0.01
39 24 0.05
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (33 bp):
CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
Found at i:67717 original size:60 final size:58
Alignment explanation
Indices: 67606--67723 Score: 155
Period size: 60 Copynumber: 2.0 Consensus size: 58
67596 TCTCTTCTCA
* *
67606 AAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACGACTCAGTGGCAATCTCTCCTCAAAGTCCACAACTCCATGGCACCCTTTT
* * * * *
67664 AAGTCCACGACTCAGTGGCACTCTTTTCCTTTAAAGTCCACGACTCCATGGCACTCTTTT
1 AAGTCCACGACTCAGTGGCAATC-TCTCC-TCAAAGTCCACAACTCCATGGCACCCTTTT
67724 CCTTTAAAGC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 22 0.43
59 3 0.06
60 26 0.51
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
AAGTCCACGACTCAGTGGCAATCTCTCCTCAAAGTCCACAACTCCATGGCACCCTTTT
Found at i:68076 original size:27 final size:27
Alignment explanation
Indices: 68036--68095 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
68026 ACCTTCTTTT
* *
68036 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCAGTGGCAC
* *
68063 CCTTTTAAGTCCACGACTCAGTGGCAC
1 CCTTTTAAGCCCACAACTCAGTGGCAC
*
68090 TCTTTT
1 CCTTTT
68096 CCTTTAAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.37, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCAGTGGCAC
Found at i:68337 original size:33 final size:32
Alignment explanation
Indices: 68300--68475 Score: 243
Period size: 31 Copynumber: 5.5 Consensus size: 32
68290 GGCATCTTTC
68300 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTCTCTAAAGCCCACACAAGTCGGTGGC-A
*
68333 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCC-TCTCTAAAGCCCACACAAGTCGGTGGCA
* *
68366 ACCCCCTC-AAAGCCCACACAAGTTGGTGGCA
1 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCA
*
68397 ACCCCCTC-AAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
68428 ACCTTCTTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTC-TCTAAAGCCCACACAAGTCGGTGGCA
68461 ACCC-CTCT-AAGCCCA
1 ACCCTCTCTAAAGCCCA
68476 ATATAGCTGG
Statistics
Matches: 133, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
30 7 0.05
31 59 0.44
32 6 0.05
33 35 0.26
34 26 0.20
ACGTcount: A:0.28, C:0.39, G:0.18, T:0.15
Consensus pattern (32 bp):
ACCCTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:68452 original size:64 final size:62
Alignment explanation
Indices: 68300--68475 Score: 228
Period size: 64 Copynumber: 2.8 Consensus size: 62
68290 GGCATCTTTC
* * *
68300 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGC
1 ACCCCCTC-AAAGCCCACACAAGTCGGTGGC-AACCC-CCTC-AAAGCCCACACAAGTCGGTGGC
68365 A
62 A
*
68366 ACCCCCTCAAAGCCCACACAAGTTGGTGGCAACCCCCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCCCTCAAAGCCCACACAAGTCGGTGGCAACCCCCTCAAAGCCCACACAAGTCGGTGGCA
* * *
68428 ACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA-CCCCTCTAAGCCCA
1 ACC-CCCT-CAAAGCCCACACAAGTCGGTGGCAACCCCCTCAAAGCCCA
68476 ATATAGCTGG
Statistics
Matches: 100, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
62 25 0.25
63 18 0.18
64 29 0.29
65 21 0.21
66 7 0.07
ACGTcount: A:0.28, C:0.39, G:0.18, T:0.15
Consensus pattern (62 bp):
ACCCCCTCAAAGCCCACACAAGTCGGTGGCAACCCCCTCAAAGCCCACACAAGTCGGTGGCA
Found at i:68586 original size:49 final size:49
Alignment explanation
Indices: 68468--69335 Score: 1175
Period size: 49 Copynumber: 17.7 Consensus size: 49
68458 GCAACCCCTC
* *
68468 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
68520 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
68569 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
68621 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
68670 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
68719 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
68768 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATATT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
68817 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
68869 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
68918 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
68967 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
69019 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
69068 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
69117 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
69160 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
69209 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
69252 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
69304 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
69336 GTTGACATCC
Statistics
Matches: 729, Mismatches: 63, Indels: 48
0.87 0.08 0.06
Matches are distributed among these distances:
43 78 0.11
45 2 0.00
47 1 0.00
49 435 0.60
50 9 0.01
51 6 0.01
52 198 0.27
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:68748 original size:150 final size:148
Alignment explanation
Indices: 68468--69335 Score: 1208
Period size: 150 Copynumber: 5.9 Consensus size: 148
68458 GCAACCCCTC
* * *
68468 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATA
* * ** *
68533 GCTGGCCTTGACTCAGCACATTGGCACCTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
63 GCTGGCCTTGAATCAGCATATTGGCATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
*
68597 GCATATTGGCACCTTTTCCATCTT
128 GCACATTGGCACC--TT-CATCTT
* * *
68621 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
68686 GGCCTTGAATCAGCATATTGGCATCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
66 GGCCTTGAATCAGCATATTGGCATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
68750 CATTGGCACCTTCATCTT
131 CATTGGCACCTTCATCTT
* * *
68768 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATATTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
68833 GGCCTTGAATCAACATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
66 GGCCTTGAATCAGCATATTGGCA--TTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
68898 CACATTGGCACCTTCATCTT
129 CACATTGGCACCTTCATCTT
* *
68918 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
68983 GGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
66 GGCCTTGAATCAGCATATTGGCA--TTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
69048 CACATTGGCACCTTCATCTT
129 CACATTGGCACCTTCATCTT
* * * *
69068 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* * * *
69133 GGCCTTGACTCAGCACATTGGCA-----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
66 GGCCTTGAATCAGCATATTGGCATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
* *
69191 TATTGGCATCTTCATCTT
131 CATTGGCACCTTCATCTT
*
69209 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
69268 GGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAG
66 GGCCTTGAATCAGCATATTGG--CATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
69333 CAC
129 CAC
69336 GTTGACATCC
Statistics
Matches: 661, Mismatches: 42, Indels: 33
0.90 0.06 0.04
Matches are distributed among these distances:
135 37 0.06
137 3 0.00
141 83 0.13
142 1 0.00
143 1 0.00
144 31 0.05
147 89 0.13
148 2 0.00
149 3 0.00
150 372 0.56
151 2 0.00
153 37 0.06
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (148 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
CATTGGCACCTTCATCTT
Found at i:68869 original size:199 final size:198
Alignment explanation
Indices: 68468--69505 Score: 1316
Period size: 199 Copynumber: 5.2 Consensus size: 198
68458 GCAACCCCTC
* *
68468 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
68533 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
63 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
*
68598 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
128 CATATTGGCACC-TTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
68663 TCATCTT
192 TCATCTT
*
68670 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* * *
68735 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGACTCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * * *
68800 ATTGGCACC-TT-CATATTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTC
131 ATTGGCACCTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-
68863 CATCTT
193 CATCTT
* * * * * *
68869 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
68934 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* *
68999 ATTGGCACCTTTTCCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
131 ATTGGCACC-TTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
69064 TCTT
195 TCTT
*
69068 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
69133 GGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
*
69192 ATTGGCATC-TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
131 ATTGGCACCTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
69249 CTT
196 CTT
* *
69252 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATGTA
* * * * * * *
69317 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
63 GCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCATCTTTAAGTCCAATATAGCTGGCCTTG
* * *
69382 AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATTTTTAAGTCCAATATCGCTGGCCT
122 AATCAGCATATTGG---------CAC-CTT-TC--CATC---TTTAAGTCCAATGTAGCTGGCCT
* *
69447 TGAATCAGCATATTGGCATCTTCATCTT
171 TGAATCAGCACATTGGCACCTTCATCTT
* * *
69475 TAAGTTCAATGTAGTTGGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
69506 CGTTGACATC
Statistics
Matches: 736, Mismatches: 55, Indels: 69
0.86 0.06 0.08
Matches are distributed among these distances:
184 39 0.05
186 6 0.01
187 41 0.06
190 43 0.06
191 2 0.00
193 42 0.06
195 1 0.00
196 42 0.06
197 3 0.00
198 2 0.00
199 351 0.48
200 5 0.01
201 2 0.00
202 78 0.11
208 2 0.00
209 1 0.00
210 1 0.00
211 1 0.00
214 4 0.01
217 38 0.05
221 1 0.00
223 31 0.04
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (198 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCACCTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
CTT
Found at i:69202 original size:92 final size:92
Alignment explanation
Indices: 69065--69335 Score: 479
Period size: 92 Copynumber: 2.9 Consensus size: 92
69055 GCACCTTCAT
69065 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
69130 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
69157 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
69222 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
69249 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
69314 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
69336 GTTGACATCC
Statistics
Matches: 172, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 130 0.76
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:69378 original size:55 final size:52
Alignment explanation
Indices: 69249--69386 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
69239 ACATTGGCAC
* *
69249 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
69301 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
69356 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
69387 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:69539 original size:171 final size:171
Alignment explanation
Indices: 69249--69643 Score: 673
Period size: 171 Copynumber: 2.3 Consensus size: 171
69239 ACATTGGCAC
*
69249 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
69314 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
69379 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
69423 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
* *
69488 GTTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
* * *
69553 GATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
69594 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
69644 ATCTCTAAAA
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
171 167 0.80
172 5 0.02
174 38 0.18
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
Found at i:70479 original size:33 final size:33
Alignment explanation
Indices: 70442--70508 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
70432 TTCAACGATT
70442 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
70475 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
70508 T
1 T
70509 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:70480 original size:13 final size:13
Alignment explanation
Indices: 70462--70486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70452 CATAAAATGT
70462 TGTATCGATACAA
1 TGTATCGATACAA
70475 TGTATCGATACA
1 TGTATCGATACA
70487 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:70567 original size:13 final size:13
Alignment explanation
Indices: 70549--70573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70539 ATTACTCACA
70549 TGTATCGATACAT
1 TGTATCGATACAT
70562 TGTATCGATACA
1 TGTATCGATACA
70574 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70638 original size:52 final size:52
Alignment explanation
Indices: 70582--70702 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
70572 CACTGATCTT
*
70582 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
70634 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
70686 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
70703 TAACTCTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:77621 original size:7 final size:7
Alignment explanation
Indices: 77609--77653 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
77599 AAAAGTAAAC
77609 ACAAAAA
1 ACAAAAA
77616 ACAAAAAAA
1 AC--AAAAA
*
77625 AAAAAAA
1 ACAAAAA
77632 ACAAAAA
1 ACAAAAA
*
77639 ACAACAA
1 ACAAAAA
77646 ACAAAAA
1 ACAAAAA
77653 A
1 A
77654 AAAGTGCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 26 0.81
9 6 0.19
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (7 bp):
ACAAAAA
Found at i:77625 original size:23 final size:23
Alignment explanation
Indices: 77609--77656 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
77599 AAAAGTAAAC
77609 ACAAAAAACAAAAAAAAAAAAAA
1 ACAAAAAACAAAAAAAAAAAAAA
*
77632 ACAAAAAACAACAAACAAAAAAAA
1 ACAAAAAACAA-AAAAAAAAAAAA
77656 A
1 A
77657 GTGCAAAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (23 bp):
ACAAAAAACAAAAAAAAAAAAAA
Found at i:77925 original size:10 final size:10
Alignment explanation
Indices: 77912--77936 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
77902 GAAACAAAAC
77912 AAAAAAGAAA
1 AAAAAAGAAA
77922 AAAAAAGAAA
1 AAAAAAGAAA
77932 AAAAA
1 AAAAA
77937 GAGGAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:77926 original size:16 final size:16
Alignment explanation
Indices: 77895--77926 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
77885 TGTTCTTTTC
*
77895 CAAAAAAGAAACAAAA
1 CAAAAAAGAAAAAAAA
77911 CAAAAAAGAAAAAAAA
1 CAAAAAAGAAAAAAAA
77927 AGAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAA
Found at i:77932 original size:16 final size:16
Alignment explanation
Indices: 77896--77933 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
77886 GTTCTTTTCC
*
77896 AAAAAAGAAACAAAAC
1 AAAAAAGAAACAAAAA
77912 AAAAAAGAAA-AAAAA
1 AAAAAAGAAACAAAAA
77927 AGAAAAA
1 A-AAAAA
77934 AAAGAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAACAAAAA
Found at i:77945 original size:10 final size:9
Alignment explanation
Indices: 77896--77938 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
77886 GTTCTTTTCC
77896 AAAAAAGAA
1 AAAAAAGAA
* *
77905 ACAAAACAA
1 AAAAAAGAA
*
77914 AAAAGA-AA
1 AAAAAAGAA
77922 AAAAAAGAA
1 AAAAAAGAA
77931 AAAAAAGA
1 AAAAAAGA
77939 GGAAAAACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:78941 original size:31 final size:31
Alignment explanation
Indices: 78860--78942 Score: 130
Period size: 31 Copynumber: 2.7 Consensus size: 31
78850 TCTCAATATT
* *
78860 AAAGTCCACGACTAAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
78891 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
* *
78922 AAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
78943 CCCTTTTAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTGCTC
Found at i:78962 original size:27 final size:27
Alignment explanation
Indices: 78923--78976 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
78913 TCTCTGCTCA
*
78923 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCAGTGGCACCCTTTT
* *
78950 AAGTCCACGACTCAGTGGCACTCTTTT
1 AAGTCCACAACTCAGTGGCACCCTTTT
78977 CCTTTAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCAGTGGCACCCTTTT
Found at i:78987 original size:33 final size:33
Alignment explanation
Indices: 78944--79625 Score: 611
Period size: 33 Copynumber: 20.0 Consensus size: 33
78934 TCCGTGGCAC
* * * *
78944 CCTTTTAAGTCCACGACTCAGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* ** *
78977 CCTTTAAAGTCCACGGCTCCATGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
79010 CCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
79043 CCTTCTAAGCCTCTAAGCCCACAACTACGTGGCACTCTTTT
1 CCTT-T-A------AAGCCCACAACTCCGTGGCACTCTTTT
* *
79084 CCTTCT-AAGCCCACAACTACGTGGCACACTTTT
1 CCTT-TAAAGCCCACAACTCCGTGGCACTCTTTT
79117 CCTTCT-AAGCCCACAACTCCGTGGCAC-CTTTTT
1 CCTT-TAAAGCCCACAACTCCGTGGCACTC-TTTT
*
79150 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 C-CTTTAAAGCCCACAACTCCGTGGCACTC-TTTT
79185 CCCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT
1 -CC--TTTAAAGCCCACAACTCCGTGGCACTCTT-TT
* *
79221 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTT
1 CCTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
* * * *
79255 CATCTTAAAGTCCACAACTCTGTGGCACACTTTTT
1 CCT-TTAAAGCCCACAACTCCGTGGCACTC-TTTT
*
79290 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 C-CTTTAAAGCCCACAACTCCGTGGCACTC-TTTT
79325 CCCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTTT
1 -CC--TTTAAAGCCCACAACTCCGTGGCA-C-TCTTTT
79363 CCTTCT-AAGCCCACAACTCCGTGGCA--C----
1 CCTT-TAAAGCCCACAACTCCGTGGCACTCTTTT
* * * *
79390 CCTTTTAAGTCCACGACTCAGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* * *
79423 CCTTTAAAGTCCACGACTCTGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
79456 CCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* *
79489 CCTTCT-AAGCCCACAACTCCGTGGTACTTTTTTT
1 CCTT-TAAAGCCCACAACTCCGTGGCAC-TCTTTT
79523 CCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTTTT
1 CCTT-TAAAGCCCACAACTCCGTGGCACTC----TTTT
*
79560 CCTTTTTAAAGCCCACAACTCTGTGGCAC-CTTGTT
1 CC--TTTAAAGCCCACAACTCCGTGGCACTCTT-TT
* * *
79595 CCTTTTAAGTCCACAACTTCGTGGCA-TCTTT
1 CCTTTAAAGCCCACAACTCCGTGGCACTCTTT
79626 CACCCTCTCT
Statistics
Matches: 560, Mismatches: 44, Indels: 91
0.81 0.06 0.13
Matches are distributed among these distances:
26 1 0.00
27 21 0.04
29 1 0.00
31 1 0.00
32 2 0.00
33 229 0.41
34 104 0.19
35 73 0.13
36 7 0.01
37 57 0.10
38 7 0.01
39 24 0.04
41 33 0.06
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (33 bp):
CCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
Found at i:79309 original size:140 final size:137
Alignment explanation
Indices: 78944--79625 Score: 701
Period size: 140 Copynumber: 5.0 Consensus size: 137
78934 TCCGTGGCAC
* * * * ** *
78944 CCTTTTAAGTCCACGACTCAGTGGCACTCTTTTC-CTTTAAAGTCCACGGCTCCATGGCACTC-T
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTCTCTTT-AAGTCCACAACTCCGTGGCACTCTT
* *
79007 TTTC-CTTTAAAGCCCACAACTACGTGGCACTC-TTTTCCTTCTAAGCCTCT-AAGCCCACAACT
65 TTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTT-T-----T-TAAAGCCCACAACT
79069 ACGTGGCACTCTTTT
123 ACGTGGCACTCTTTT
* * *
79084 CCTTCTAAGCCCACAACTACGTGGCACACTTTTC-CTTCTAAGCCCACAACTCCGTGGCAC-CTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTCTCTT-TAAGTCCACAACTCCGTGGCACTCTT
*
79147 TTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGG
65 TTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTTAAAGCCCACAACTACGTGG
79212 CAC-CTTCTT
129 CACTCTT-TT
* * * * * *
79221 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTAAAGTCCACAACTCTGTGGCACACT
1 C-CTTCTAAGCCCACAACTCCGTGGCACTCTTTTC-TCTTTAAGTCCACAACTCCGTGGCACTCT
*
79286 TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTG
64 TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTTAAAGCCCACAACTACGTG
79351 GCACCTTCTTTT
128 GCA-C-TCTTTT
* *
79363 CCTTCTAAGCCCACAACTCCGTGGCAC-C----CT-TTTAAGTCCACGACTCAGTGGCACTC-TT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTCTCTTTAAGTCCACAACTCCGTGGCACTCTTT
* * * *
79421 TTC-CTTTAAAGTCCACGACTCTGTGGCACTC-TTTTCC--TTTAAAGCCCACAACTACGTGGCA
66 TTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTACGTGGCA
79482 CTCTTTT
131 CTCTTTT
* * *
79489 CCTTCTAAGCCCACAACTCCGTGGTACT-TTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTCT-CTT-TAAGTCCACAACTCCGTGGCACTC-
* * * *
79553 TTTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCAC-CTTGTTCC-TTTT-AAGTCCACAACTTC
63 --TTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTAC
79615 GTGGCA-TCTTT
125 GTGGCACTCTTT
79626 CACCCTCTCT
Statistics
Matches: 468, Mismatches: 44, Indels: 62
0.82 0.08 0.11
Matches are distributed among these distances:
126 32 0.07
127 1 0.00
128 23 0.05
130 3 0.01
131 4 0.01
132 26 0.06
133 26 0.06
134 22 0.05
135 1 0.00
136 5 0.01
137 28 0.06
138 35 0.07
139 66 0.14
140 129 0.28
141 52 0.11
142 8 0.02
143 7 0.01
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (137 bp):
CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTCTCTTTAAGTCCACAACTCCGTGGCACTCTTT
TTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTACGTGGCA
CTCTTTT
Found at i:79403 original size:27 final size:27
Alignment explanation
Indices: 79363--79422 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
79353 ACCTTCTTTT
* *
79363 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCAGTGGCAC
* *
79390 CCTTTTAAGTCCACGACTCAGTGGCAC
1 CCTTTTAAGCCCACAACTCAGTGGCAC
*
79417 TCTTTT
1 CCTTTT
79423 CCTTTAAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.37, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCAGTGGCAC
Found at i:79664 original size:33 final size:32
Alignment explanation
Indices: 79627--79802 Score: 243
Period size: 31 Copynumber: 5.5 Consensus size: 32
79617 GGCATCTTTC
79627 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTCTCTAAAGCCCACACAAGTCGGTGGC-A
*
79660 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCC-TCTCTAAAGCCCACACAAGTCGGTGGCA
* *
79693 ACCCCCTC-AAAGCCCACACAAGTTGGTGGCA
1 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCA
*
79724 ACCCCCTC-AAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
79755 ACCTTCTTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTC-TCTAAAGCCCACACAAGTCGGTGGCA
79788 ACCC-CTCT-AAGCCCA
1 ACCCTCTCTAAAGCCCA
79803 ATATAGCTGG
Statistics
Matches: 133, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
30 7 0.05
31 59 0.44
32 6 0.05
33 35 0.26
34 26 0.20
ACGTcount: A:0.28, C:0.39, G:0.18, T:0.15
Consensus pattern (32 bp):
ACCCTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:79779 original size:64 final size:62
Alignment explanation
Indices: 79627--79802 Score: 228
Period size: 64 Copynumber: 2.8 Consensus size: 62
79617 GGCATCTTTC
* * *
79627 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGC
1 ACCCCCTC-AAAGCCCACACAAGTCGGTGGC-AACCC-CCTC-AAAGCCCACACAAGTCGGTGGC
79692 A
62 A
*
79693 ACCCCCTCAAAGCCCACACAAGTTGGTGGCAACCCCCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCCCTCAAAGCCCACACAAGTCGGTGGCAACCCCCTCAAAGCCCACACAAGTCGGTGGCA
* * *
79755 ACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA-CCCCTCTAAGCCCA
1 ACC-CCCT-CAAAGCCCACACAAGTCGGTGGCAACCCCCTCAAAGCCCA
79803 ATATAGCTGG
Statistics
Matches: 100, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
62 25 0.25
63 18 0.18
64 29 0.29
65 21 0.21
66 7 0.07
ACGTcount: A:0.28, C:0.39, G:0.18, T:0.15
Consensus pattern (62 bp):
ACCCCCTCAAAGCCCACACAAGTCGGTGGCAACCCCCTCAAAGCCCACACAAGTCGGTGGCA
Found at i:79913 original size:49 final size:49
Alignment explanation
Indices: 79795--80760 Score: 1335
Period size: 49 Copynumber: 19.7 Consensus size: 49
79785 GCAACCCCTC
* *
79795 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
79847 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
79896 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
79948 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
79997 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
80046 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
80095 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
80144 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
80196 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
80245 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
80294 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
80343 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
80392 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
80444 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
80493 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
80542 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
80585 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
80634 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
80677 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
80729 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
80761 GTTGACATCC
Statistics
Matches: 819, Mismatches: 71, Indels: 48
0.87 0.08 0.05
Matches are distributed among these distances:
43 78 0.10
45 2 0.00
47 1 0.00
49 524 0.64
50 9 0.01
51 6 0.01
52 199 0.24
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:80196 original size:199 final size:196
Alignment explanation
Indices: 79795--80826 Score: 1431
Period size: 199 Copynumber: 5.2 Consensus size: 196
79785 GCAACCCCTC
* *
79795 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
*
79860 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAA
63 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
79925 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
128 CATATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
79990 TCATCTT
190 TCATCTT
*
79997 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* * *
80062 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGACTCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * *
80127 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCA
131 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC--TT-CA
80192 TCTT
193 TCTT
* * * * * *
80196 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* * * * * *
80261 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* *
80326 ATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCT
131 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCT
80391 T
196 T
* *
80392 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
*
80457 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
63 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
*
80522 CATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C-
128 CATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
80582 -CTT
193 TCTT
*
80585 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
80650 GGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * * * *
80709 ATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTT
131 ATTGGCAC--CTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CC---
80774 TTCTCATCTT
189 -T-TCATCTT
* * * * *
80784 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTT
80827 TATCACTCTT
Statistics
Matches: 751, Mismatches: 58, Indels: 45
0.88 0.07 0.05
Matches are distributed among these distances:
184 41 0.05
186 3 0.00
187 41 0.05
190 43 0.06
191 3 0.00
193 41 0.05
195 1 0.00
196 86 0.11
197 5 0.01
198 4 0.01
199 443 0.59
200 3 0.00
202 37 0.05
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (196 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCT
T
Found at i:80279 original size:248 final size:248
Alignment explanation
Indices: 79795--80759 Score: 1591
Period size: 248 Copynumber: 3.9 Consensus size: 248
79785 GCAACCCCTC
* * * * * *
79795 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATC
*
79860 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAA
63 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
79925 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
128 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
79990 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
193 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
80046 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
80111 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
80176 ATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
131 ATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
80241 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
196 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
80294 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
80359 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
*
80424 ATTGGCACCTTTTCCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
131 ATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
80489 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
196 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
80542 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* * * * *
80601 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * * *
80666 ATTGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTT
131 ATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC--CTT
* * *
80722 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
194 -CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
80760 CGTTGACATC
Statistics
Matches: 691, Mismatches: 20, Indels: 21
0.94 0.03 0.03
Matches are distributed among these distances:
233 40 0.06
235 3 0.00
236 34 0.05
242 86 0.12
244 1 0.00
248 488 0.71
249 2 0.00
251 37 0.05
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (248 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
Found at i:80647 original size:92 final size:92
Alignment explanation
Indices: 80490--80760 Score: 479
Period size: 92 Copynumber: 2.9 Consensus size: 92
80480 GCACCTTCAT
80490 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
80555 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
80582 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
80647 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
80674 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
80739 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
80761 GTTGACATCC
Statistics
Matches: 172, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 130 0.76
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:80803 original size:55 final size:52
Alignment explanation
Indices: 80674--80811 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
80664 ACATTGGCAC
* *
80674 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
80726 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
80781 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
80812 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:80964 original size:171 final size:171
Alignment explanation
Indices: 80674--81068 Score: 673
Period size: 171 Copynumber: 2.3 Consensus size: 171
80664 ACATTGGCAC
*
80674 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
80739 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
80804 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
80848 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
* *
80913 GTTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
* * *
80978 GATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
81019 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
81069 ATCTCTAAAA
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
171 167 0.80
172 5 0.02
174 38 0.18
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
Found at i:81904 original size:33 final size:33
Alignment explanation
Indices: 81867--81933 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
81857 TTCAACGATT
81867 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
81900 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
81933 T
1 T
81934 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:81905 original size:13 final size:13
Alignment explanation
Indices: 81887--81911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81877 CATAAAATGT
81887 TGTATCGATACAA
1 TGTATCGATACAA
81900 TGTATCGATACA
1 TGTATCGATACA
81912 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:81992 original size:13 final size:13
Alignment explanation
Indices: 81974--81998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81964 ATTACTCACA
81974 TGTATCGATACAT
1 TGTATCGATACAT
81987 TGTATCGATACA
1 TGTATCGATACA
81999 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:82063 original size:52 final size:52
Alignment explanation
Indices: 82007--82127 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
81997 CACTGATCTT
*
82007 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
82059 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
82111 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
82128 TAACTCTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:89675 original size:72 final size:72
Alignment explanation
Indices: 89558--89734 Score: 318
Period size: 72 Copynumber: 2.5 Consensus size: 72
89548 TCCCGTAGCC
*
89558 ATGTATCGATACAATTCAAAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGCCGTT
1 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGCCGTT
89623 ACAAGCA
66 ACAAGCA
89630 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGCCGTT
1 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGCCGTT
89695 ACAAGCA
66 ACAAGCA
* * *
89702 ATGTATCGATACAATCCATCATATATCGATACA
1 ATGTATCGATACAATTCATAATGTATCGATACA
89735 ATATCCTATG
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 101 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (72 bp):
ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTATAGCCGTTTATAGCCGTT
ACAAGCA
Found at i:89748 original size:20 final size:21
Alignment explanation
Indices: 89702--89757 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
89692 GTTACAAGCA
89702 ATGTATCGATAC-AATCCATC
1 ATGTATCGATACAAATCCATC
*
89722 ATATATCGATACAATATCC-T-
1 ATGTATCGATACAA-ATCCATC
89742 ATGTATCGATACAAAT
1 ATGTATCGATACAAAT
89758 AGTGGTAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 2 0.06
20 24 0.75
21 2 0.06
22 4 0.12
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACAAATCCATC
Found at i:89819 original size:20 final size:19
Alignment explanation
Indices: 89785--89856 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
89775 TGCCAGTTTT
* **
89785 ATGTATCAATACAATTGTCC
1 ATGTATCGATACAA-TGAAC
*
89805 ATGTATCGATGCAATGAAC
1 ATGTATCGATACAATGAAC
* *
89824 ATGTATCGATACAAAGTAC
1 ATGTATCGATACAATGAAC
89843 AATGTATCGATACA
1 -ATGTATCGATACA
89857 TCTGGGTGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 19 0.43
20 25 0.57
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:89828 original size:19 final size:19
Alignment explanation
Indices: 89804--89856 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
89794 TACAATTGTC
* *
89804 CATGTATCGATGCAATGAA
1 CATGTATCGATACAAAGAA
*
89823 CATGTATCGATACAAAGTA
1 CATGTATCGATACAAAGAA
89842 CAATGTATCGATACA
1 C-ATGTATCGATACA
89857 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (19 bp):
CATGTATCGATACAAAGAA
Found at i:90300 original size:18 final size:18
Alignment explanation
Indices: 90279--90314 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
90269 ATTTTTTTAC
*
90279 CAAAAATATTTTTAATTA
1 CAAAAATATCTTTAATTA
*
90297 CAAAATTATCTTTAATTA
1 CAAAAATATCTTTAATTA
90315 TTATTAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (18 bp):
CAAAAATATCTTTAATTA
Found at i:91441 original size:2 final size:2
Alignment explanation
Indices: 91434--91460 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
91424 ACCAAGACAA
91434 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
91461 AATACATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91764 original size:27 final size:27
Alignment explanation
Indices: 91711--91823 Score: 88
Period size: 30 Copynumber: 3.9 Consensus size: 27
91701 TATATTTTAT
91711 TATTTTATTATTT-TATAATTATATTTAAAA
1 TATTTTA-TATTTATATAA--AT-TTTAAAA
*
91741 TATTTTATATTTATATAAATTTTAATA
1 TATTTTATATTTATATAAATTTTAAAA
*
91768 TATTAATTAT-TTATATTATATATTTTAAAA
1 TATT--TTATATT-TA-TATAAATTTTAAAA
*
91798 TATTTATAAATTTA-ATAAAATTTTAA
1 TATTT-TATATTTATAT-AAATTTTAA
91824 TTATTTTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
27 12 0.17
28 13 0.19
29 15 0.21
30 30 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTTTATATTTATATAAATTTTAAAA
Found at i:91799 original size:57 final size:57
Alignment explanation
Indices: 91704--91828 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 57
91694 ATCTTTGTAT
* * *
91704 ATTTTATTAT-TTTATTATTTTATAATTATATTTAAAATATTT-TATATTT-ATATAA
1 ATTTTAATATATTAATTATTTTATAATTATATTTAAAATATTTATAAATTTAATA-AA
*
91759 ATTTTAATATATTAATTA-TTTATATTATATATTTTAAAATATTTATAAATTTAATAAA
1 ATTTTAATATATTAATTATTTTATAAT-TATA-TTTAAAATATTTATAAATTTAATAAA
91817 ATTTTAAT-TATT
1 ATTTTAATATATT
91829 TTTTTATCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
55 16 0.26
56 10 0.16
57 16 0.26
58 16 0.26
59 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (57 bp):
ATTTTAATATATTAATTATTTTATAATTATATTTAAAATATTTATAAATTTAATAAA
Found at i:91804 original size:18 final size:18
Alignment explanation
Indices: 91730--91810 Score: 53
Period size: 18 Copynumber: 4.4 Consensus size: 18
91720 ATTTTATAAT
91730 TATA-TTTAAAATATTT-
1 TATATTTTAAAATATTTA
91746 TATATTTATATAAAT-TTTAA
1 TATATTT-TA-AAATATTT-A
**
91766 TATATTAATT-ATTTATATTA
1 TATATT--TTAAAATAT-TTA
91786 TATATTTTAAAATATTTA
1 TATATTTTAAAATATTTA
*
91804 TAAATTT
1 TATATTT
91811 AATAAAATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
16 4 0.08
17 2 0.04
18 16 0.32
19 10 0.20
20 14 0.28
21 3 0.06
22 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATTTTAAAATATTTA
Found at i:91841 original size:57 final size:55
Alignment explanation
Indices: 91704--91841 Score: 140
Period size: 57 Copynumber: 2.4 Consensus size: 55
91694 ATCTTTGTAT
* * *
91704 ATTTT-ATTATTTTATTATTTTATAATTATATTTAAAATATTTTATATTTATATAA
1 ATTTTAATTATTTTATTA-TATATTATTATATTTAAAATATTTTAAATTTATATAA
91759 ATTTTAATATATTAATTATT-TATATTA-TATATTTTAAAATATTTATAAATTTA-ATAAA
1 ATTTTAAT-TATT--TTATTATATATTATTATA-TTTAAAATATTT-TAAATTTATAT-AA
*
91817 ATTTTAATTATTTTTTTATCATATT
1 ATTTTAATTATTTTATTAT-ATATT
91842 TATGTAATTA
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
55 9 0.13
56 7 0.10
57 32 0.46
58 17 0.24
59 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (55 bp):
ATTTTAATTATTTTATTATATATTATTATATTTAAAATATTTTAAATTTATATAA
Found at i:98357 original size:42 final size:42
Alignment explanation
Indices: 98296--98427 Score: 158
Period size: 42 Copynumber: 3.1 Consensus size: 42
98286 TAGCCCTCAA
* * *
98296 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
*
98338 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
* * * * * *
98380 AGAGATAATAAAGAGAAGAGGGGTGACAGGAGGAGGAGAGAAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGA-GAGACAAG
98423 A-AGAT
1 AGAGAT
98428 GGAAGAGTGA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 70 0.90
43 8 0.10
ACGTcount: A:0.45, C:0.02, G:0.44, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
Found at i:109511 original size:2 final size:2
Alignment explanation
Indices: 109504--109536 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
109494 GTAATCTGTT
109504 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
109537 CATTTCTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120309 original size:11 final size:12
Alignment explanation
Indices: 120293--120344 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
120283 ATTTGACATT
120293 AAAAAATAATAA
1 AAAAAATAATAA
120305 AAAAATATAATCAA
1 AAAAA-ATAAT-AA
*
120319 AATAAA-AATATA
1 AAAAAATAATA-A
*
120331 AAAAAAGAATAA
1 AAAAAATAATAA
120343 AA
1 AA
120345 TTAAAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 1 0.03
12 17 0.50
13 10 0.29
14 6 0.18
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAAAATAATAA
Found at i:120334 original size:25 final size:24
Alignment explanation
Indices: 120292--120351 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
120282 TATTTGACAT
* * *
120292 TAAAA-AATAATAAAAAAATATAA
1 TAAAATAAAAATAAAAAAAAAGAA
*
120315 TCAAAATAAAAATATAAAAAAAGAA
1 T-AAAATAAAAATAAAAAAAAAGAA
*
120340 TAAAATTAAAAT
1 TAAAATAAAAAT
120352 TTAGTTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 1 0.03
24 14 0.47
25 15 0.50
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (24 bp):
TAAAATAAAAATAAAAAAAAAGAA
Found at i:120512 original size:57 final size:57
Alignment explanation
Indices: 120424--120534 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
120414 AATTTGATGG
* * *
120424 ATTTCATGTTTAATTTTCTGCCACCTAAGCTTTCTAGGTATCATTGCATTGCATTGA
1 ATTTCATGTTTAATTTGCTACCACCTAAGCTTTCTAAGTATCATTGCATTGCATTGA
* *
120481 ATTTCATGTTTAATTTGCTACCATCTAAGCTTTCTAAGTGTCATTGCATTGCAT
1 ATTTCATGTTTAATTTGCTACCACCTAAGCTTTCTAAGTATCATTGCATTGCAT
120535 GTTTTCATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (57 bp):
ATTTCATGTTTAATTTGCTACCACCTAAGCTTTCTAAGTATCATTGCATTGCATTGA
Found at i:120724 original size:38 final size:38
Alignment explanation
Indices: 120668--120744 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
120658 AAGGAGATGT
* * *
120668 AATTAAAGCTGCTGCAAACGGCAGCAATGAAGAATGCA
1 AATTAAAGCTGCTACAAACGACAGCAATGAAGAAAGCA
* *
120706 AATTAAAGCTGCTACAAACGATAGCACTGAAGAAAGCA
1 AATTAAAGCTGCTACAAACGACAGCAATGAAGAAAGCA
120744 A
1 A
120745 TGAAGAATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (38 bp):
AATTAAAGCTGCTACAAACGACAGCAATGAAGAAAGCA
Found at i:121144 original size:20 final size:20
Alignment explanation
Indices: 121119--121173 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
121109 TTTTCACAAT
* * *
121119 TTGTATCGATGCATTGTTTA
1 TTGTATCGATACATTATTCA
*
121139 TTGTATCGATACGTTATTCA
1 TTGTATCGATACATTATTCA
*
121159 TTGTATCGACACATT
1 TTGTATCGATACATT
121174 CAGGCATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTATTCA
Found at i:123596 original size:79 final size:78
Alignment explanation
Indices: 123465--123772 Score: 289
Period size: 79 Copynumber: 3.9 Consensus size: 78
123455 TTTTCATTTC
* * * * *
123465 GGGGATACTCCAACCCCAGTTTTATTTCCAATACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAA-CCCAGTTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAAC
123530 CCCGTTATTTCTGA
65 CCCGTTATTTCTGA
* * * * *
123544 GGGGATACTCCAATCCCGGCTTTATTTCTAAAACATTGATTTCTCACAATCGGGCATACTCCAAC
1 GGGGATACTCCAA-CCCAGTTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAAC
*
123609 CCCGTTATTTTTGA
65 CCCGTTATTTCTGA
* * * * * *
123623 -GGGATATTCTAACCCTAATTTTATTT-TCAGAATATCGATTTTTCACAATCAGGGATACTCCAA
1 GGGGATACTCCAACCC-AGTTTTATTTCT-AAAACATCGATTTTTCACAATCGGGGATACTCCAA
*
123686 CCCCGTTATTT-TCAA
64 CCCCGTTATTTCT-GA
* ** * * * * * *
123701 GAGGATACTTAAACCCTGATTTTATTTCTAGAACACCGATTTTCCATAATCAGGGGATACTCCAG
1 GGGGATACTCCAACCCAG-TTTTATTTCTAAAACATCGATTTTTCACAATC-GGGGATACTCCAA
123766 CCCCGTT
64 CCCCGTT
123773 GTCATCTCCA
Statistics
Matches: 186, Mismatches: 36, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
77 5 0.03
78 58 0.31
79 104 0.56
80 19 0.10
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAACCCAGTTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTCTGA
Found at i:137268 original size:62 final size:62
Alignment explanation
Indices: 137167--137844 Score: 953
Period size: 61 Copynumber: 11.0 Consensus size: 62
137157 TTTCTCCTTT
* * * *
137167 CACTTTTC-AGTCCTCAAGGAGCAGGATGCCTTTTTCTTTTAAAGCCTACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
137228 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
137290 TACTTTTC-AGTCCTCAAGGAGTAGGATGCCTTTTCCTTTTAAAGCTCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
137351 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
137413 CACTTTTCTAGTCCTCAAAGAGTAGGA-GACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACG-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
137475 CAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
137536 CACTTTTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
137598 CACCTTT-TAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAACCCATACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
137659 CATTTTTC-AGTCCTC-AAGAAGCAAGACGCCTTTTCCTTTTAAAGCCAACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAG-AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
137720 CAC-CTTCCAATCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * ** * *
137781 CAC-CTTCCAATCCTCAAAGAGCAGGATG-CTTTCTCCTTGCAGAGCCCATACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGG
137842 CAC
1 CAC
137845 CTGCTAGTCC
Statistics
Matches: 561, Mismatches: 46, Indels: 20
0.89 0.07 0.03
Matches are distributed among these distances:
60 10 0.02
61 321 0.57
62 230 0.41
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (62 bp):
CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:137387 original size:123 final size:122
Alignment explanation
Indices: 137167--137868 Score: 971
Period size: 123 Copynumber: 5.7 Consensus size: 122
137157 TTTCTCCTTT
* * *
137167 CACTTTTCAGTCCTCAAGGAGCAGGATGCCTTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACT
1 CACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-
137232 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
65 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
137290 TACTTTTCAGTCCTCAAGGAGTAGGATGCCTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACT
1 CACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-
*
137355 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGG
65 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
137413 CACTTTTCTAGTCCTCAAAGAGTAGGA-GACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CACTTTTC-AGTCCTCAAAGAGCAGGATG-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
137477 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
64 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* **
137536 CACTTTTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CAC-TTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
* * * *
137601 CTTT-TAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAACCCATACAAGTTGGTGG
64 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
137659 CATTTTTCAGTCCTC-AAGAAGCAAGACGCCTTTTCCTTTTAAAGCCAACACAAGTTGGTGGCAC
1 CACTTTTCAGTCCTCAAAG-AGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
137723 CTTCCAATCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
65 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * ** * *
137781 CACCTTCCAATCCTCAAAGAGCAGGATG-CTTTCTCCTTGCAGAGCCCATACAAGTTGGTGGCAC
1 CACTTTTCAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
137845 CTGCTAGTCCCCTAGGAGCAGGAC
65 TTTCTAGTCCTCAAAGAGCAGGAC
137869 CCATTTCATT
Statistics
Matches: 522, Mismatches: 48, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
121 10 0.02
122 162 0.31
123 291 0.56
124 59 0.11
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (122 bp):
CACTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:140264 original size:24 final size:27
Alignment explanation
Indices: 140214--140271 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 27
140204 TATTTGACAT
*
140214 TAAAAATAATAAAAAATATAATCAAAA
1 TAAAAATAATAAAAAATAGAATCAAAA
140241 TAAAAAT-ATAAAAAA-AGAAT-AAAA
1 TAAAAATAATAAAAAATAGAATCAAAA
*
140265 TTAAAAT
1 TAAAAAT
140272 TTAGTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.34
25 4 0.14
26 8 0.28
27 7 0.24
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (27 bp):
TAAAAATAATAAAAAATAGAATCAAAA
Found at i:140432 original size:57 final size:57
Alignment explanation
Indices: 140344--140454 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
140334 AATTTGATGG
* * *
140344 ATTTCATGTTTAATTTTCTGCCACCTAAGCTTTCTAGGTGTCATTGCATTGCATTGA
1 ATTTCATGTTTAATTTGCTACCACCTAAGCTTTCTAAGTGTCATTGCATTGCATTGA
*
140401 ATTTCATGTTTAATTTGCTACCATCTAAGCTTTCTAAGTGTCATTGCATTGCAT
1 ATTTCATGTTTAATTTGCTACCACCTAAGCTTTCTAAGTGTCATTGCATTGCAT
140455 GCTTTCATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (57 bp):
ATTTCATGTTTAATTTGCTACCACCTAAGCTTTCTAAGTGTCATTGCATTGCATTGA
Found at i:140634 original size:38 final size:38
Alignment explanation
Indices: 140584--140664 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
140574 TATCAACGAG
** *
140584 ATGC-AATTAAAGCTGCTGCAAACGGTAGCAATGAAGA
1 ATGCAAATTAAAGCTGCTGCAAACGACAGAAATGAAGA
140621 ATGCAAATTAAAGCTGCTGCAAACGACAGAAATGAAGA
1 ATGCAAATTAAAGCTGCTGCAAACGACAGAAATGAAGA
*
140659 AAGCAA
1 ATGCAA
140665 TGAACAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 4 0.10
38 35 0.90
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (38 bp):
ATGCAAATTAAAGCTGCTGCAAACGACAGAAATGAAGA
Found at i:141051 original size:13 final size:13
Alignment explanation
Indices: 141035--141064 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
141025 ATACATTGTT
141035 CATTGTATCGATA
1 CATTGTATCGATA
141048 CATTGTATCGATA
1 CATTGTATCGATA
141061 CATT
1 CATT
141065 CAGGCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:143576 original size:79 final size:77
Alignment explanation
Indices: 143400--143586 Score: 239
Period size: 78 Copynumber: 2.4 Consensus size: 77
143390 ATATTTCAAC
* * * *
143400 CCTGATTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTCGA
1 CCTGATTTTATTTCTAGAACACCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTCAA
143465 GGGATACTCCAA
66 GGGATACTCCAA
** * * **
143477 CCCCAGTTTTATTTCCAGAACACCGATTTTTTACAATCGGGGATACTCCAACCCTGTTATTTTCA
1 CCTGA-TTTTATTTCTAGAACACCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTCA
*
143542 AGGGGATACTCCAT
65 A-GGGATACTCCAA
143556 CCTTGATTTTATTTCTAGAACACCTGATTTT
1 CC-TGATTTTATTTCTAGAACACC-GATTTT
143587 CCATAGTTTG
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
77 3 0.03
78 52 0.57
79 30 0.33
80 7 0.08
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.36
Consensus pattern (77 bp):
CCTGATTTTATTTCTAGAACACCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTCAA
GGGATACTCCAA
Found at i:145508 original size:23 final size:23
Alignment explanation
Indices: 145482--145546 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
145472 GCAAAAGAGT
145482 AACCAAAACAATAGCAAAACAAC
1 AACCAAAACAATAGCAAAACAAC
* **
145505 AACCAAAGCGGTAGCAAAACAAC
1 AACCAAAACAATAGCAAAACAAC
* *
145528 AA-AAGAAATAATAGCAAAA
1 AACCA-AAACAATAGCAAAA
145547 ACAAGAAGCT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.63, C:0.20, G:0.11, T:0.06
Consensus pattern (23 bp):
AACCAAAACAATAGCAAAACAAC
Found at i:151202 original size:21 final size:21
Alignment explanation
Indices: 151178--151220 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
151168 AAGCGTGTGT
*
151178 GTTTAGACTTTACGAACCCAG
1 GTTTAGACTTTACGAAACCAG
* *
151199 GTTTAGGCTTTAGGAAACCAG
1 GTTTAGACTTTACGAAACCAG
151220 G
1 G
151221 AAGCTTGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (21 bp):
GTTTAGACTTTACGAAACCAG
Found at i:153114 original size:4 final size:4
Alignment explanation
Indices: 153100--153190 Score: 56
Period size: 4 Copynumber: 22.5 Consensus size: 4
153090 ACCTAATGCC
* ** * * * *
153100 TACA GTACA TACA TATA TACA CGCA TACA TGCA TGCA TGCA TACA TCCA
1 TACA -TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
153149 TCCA TCCA TCCA TCCA TCCA TCCA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
153191 GAGACCCAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
4 72 0.95
5 4 0.05
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:153137 original size:12 final size:12
Alignment explanation
Indices: 153100--153190 Score: 67
Period size: 12 Copynumber: 7.5 Consensus size: 12
153090 ACCTAATGCC
*
153100 TACAGTACATACA
1 TACA-TACATCCA
*
153113 TATATACA-CGCA
1 TACATACATC-CA
* *
153125 TACATGCATGCA
1 TACATACATCCA
*
153137 TGCATACATCCA
1 TACATACATCCA
* *
153149 TCCATCCATCCA
1 TACATACATCCA
* *
153161 TCCATCCATCCA
1 TACATACATCCA
*
153173 TACATACATACA
1 TACATACATCCA
153185 TACATA
1 TACATA
153191 GAGACCCAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
12 60 0.95
13 3 0.05
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.25
Consensus pattern (12 bp):
TACATACATCCA
Found at i:154184 original size:65 final size:65
Alignment explanation
Indices: 154080--154206 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
154070 TAATGTTCAT
*
154080 CATGCTGGATATGTCAACAAAATGCAATCCAATTTTAAGATCTGGATTCTGTAAGCTAATTGAAA
1 CATGCTGGATATGGCAACAAAATGCAATCCAATTTTAAGATCTGGATTCTGTAAGCTAATTGAAA
*
154145 CATGCTGGATATGGCAACAAAATGCAATCCAATTTTAAGATCTGGATTCTGTATGCTAATTG
1 CATGCTGGATATGGCAACAAAATGCAATCCAATTTTAAGATCTGGATTCTGTAAGCTAATTG
154207 CTAGGTGGTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (65 bp):
CATGCTGGATATGGCAACAAAATGCAATCCAATTTTAAGATCTGGATTCTGTAAGCTAATTGAAA
Found at i:157431 original size:20 final size:20
Alignment explanation
Indices: 157406--157502 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
157396 AACTACCTGC
157406 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* *
157426 ATGTATCGATACAATGATAA
1 ATGTATCGATACATTGAAAA
* *
157446 ATGTATCAATACAATT-ATAAGT
1 ATGTATCGATAC-ATTGA-AA-A
* ***
157468 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTGAAAA
157488 ATGTATCGATACATT
1 ATGTATCGATACATT
157503 TCTTTGGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
20 46 0.72
21 6 0.09
22 12 0.19
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:157474 original size:22 final size:20
Alignment explanation
Indices: 157406--157480 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
157396 AACTACCTGC
* *
157406 ATGTATCGATACATTGAAAA
1 ATGTATCGATACAATGATAA
157426 ATGTATCGATACAATGATAA
1 ATGTATCGATACAATGATAA
* *
157446 ATGTATCAATACAATTATAA
1 ATGTATCGATACAATGATAA
157466 GTATGTATCGATACA
1 --ATGTATCGATACA
157481 TTTACTTATG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 36 0.75
22 12 0.25
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGATAA
Found at i:159839 original size:16 final size:16
Alignment explanation
Indices: 159814--159861 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
159804 CCCAATAGTC
159814 TTTT-TTATTTTTAAT
1 TTTTATTATTTTTAAT
*
159829 TTTTATTA-TTTTATT
1 TTTTATTATTTTTAAT
*
159844 TTTTATGACTTTTTAAT
1 TTTTATTA-TTTTTAAT
159861 T
1 T
159862 AGGTCTGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 17 0.63
16 3 0.11
17 7 0.26
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTATTATTTTTAAT
Found at i:173668 original size:73 final size:72
Alignment explanation
Indices: 173581--173930 Score: 314
Period size: 74 Copynumber: 4.8 Consensus size: 72
173571 AAAACTAATA
* * *
173581 TTACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCTTATAATTAACCAAAAAAATAAAT
1 TTACAAATAAAAATAAATCATACCTTAAAAAATTTAAACTCGTATAATTAACC-AAAAAACAAAT
173646 TTAAACTT
65 TTAAACTT
* * * * ** * *
173654 CTACAAATAAAAATAAATCATAACTCAAAAAAATTTGAACTTATATAATCAAATCAAAAAACAAA
1 TTACAAATAAAAATAAATCATACCT-TAAAAAATTTAAACTCGTATAAT-TAACCAAAAAACAAA
*
173719 TTTAAATTT
64 TTTAAACTT
* * * * * * *
173728 TTACAAATAAAAATAAATTATACCTTTAAAAATTTAAATTCGTGTAGTTATACTTACAAAACAAA
1 TTACAAATAAAAATAAATCATACCTTAAAAAATTTAAACTCGTATAATTA-AC-CAAAAAACAAA
*
173793 TTTAAATTT
64 TTTAAACTT
** ** * * *
173802 TTTGAAATAAAAATAAAAAATACCTT--AAAATTTAAAATCGCATAATTAACCAAAAAATAAATT
1 TTACAAATAAAAATAAATCATACCTTAAAAAATTTAAACTCGTATAATTAACCAAAAAACAAATT
173865 TAAACTT
66 TAAACTT
* * * * * *
173872 TTTCAAAT-AAAA-AAATTATAAC-TAAAAAATTTAAACTCATATAATCATACCTAAAAACA
1 TTACAAATAAAAATAAATCATACCTTAAAAAATTTAAACTCGTATAATTA-ACCAAAAAACA
173931 CTTTTACAAA
Statistics
Matches: 223, Mismatches: 47, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
67 1 0.00
68 7 0.03
69 22 0.10
70 32 0.14
71 2 0.01
72 19 0.09
73 39 0.17
74 98 0.44
75 3 0.01
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (72 bp):
TTACAAATAAAAATAAATCATACCTTAAAAAATTTAAACTCGTATAATTAACCAAAAAACAAATT
TAAACTT
Found at i:174108 original size:74 final size:73
Alignment explanation
Indices: 174030--174307 Score: 226
Period size: 74 Copynumber: 3.8 Consensus size: 73
174020 TAAACTAATC
* * * *
174030 TTAAAAATAAAATAAATCATACCTTAAAAAAAATTTTAACTCCTATAATCA-ACTCAAAGAATAA
1 TTAAAAATAAAATAAATCATACATT--AAAAAATTTAAAATCCTATAATCATACTCAAAAAATAA
*
174094 ATTTAGACTT
64 ATTTAAACTT
* ** *
174104 TTAAAAATAAAAAGTAAATCGTACATTAAAAAATTTAAAATTTTATAATCATATTCAAAAAATAA
1 TTAAAAAT-AAAA-TAAATCATACATTAAAAAATTTAAAATCCTATAATCATACTCAAAAAATAA
174169 ATTTAAACTT
64 ATTTAAACTT
* * * * * * * * *
174179 CT-AAAA-AAAATAAATCATA-ATTTAAAATTTTAAACTCGTGTAATCAAAC-CAAAATACAAAT
1 TTAAAAATAAAATAAATCATACATTAAAAAATTTAAAATCCTATAATCATACTCAAAAAATAAAT
174240 TTAAACTT
66 TTAAACTT
* * * * * * * * *
174248 CTACAGATAAAAATAAATTATGCCTTAAAAAATTTAAACTCATATAATCATA-TCTAAAAA
1 TTAAAAAT-AAAATAAATCATACATTAAAAAATTTAAAATCCTATAATCATACTCAAAAAA
174308 CACTTTCACA
Statistics
Matches: 163, Mismatches: 33, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
69 20 0.12
70 24 0.15
71 8 0.05
72 15 0.09
73 28 0.17
74 32 0.20
75 25 0.15
76 11 0.07
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.32
Consensus pattern (73 bp):
TTAAAAATAAAATAAATCATACATTAAAAAATTTAAAATCCTATAATCATACTCAAAAAATAAAT
TTAAACTT
Found at i:174260 original size:376 final size:380
Alignment explanation
Indices: 173658--174379 Score: 915
Period size: 376 Copynumber: 1.9 Consensus size: 380
173648 AAACTTCTAC
* *
173658 AAATAAAAATAAATCATAACTCAAAAAAATTTGAACTTATATAATCAAATCAAAAAACAAATTTA
1 AAATAAAAATAAATCATAACTAAAAAAAATTTGAACTCATATAATCAAATCAAAAAACAAATTTA
* * * * * * * * *
173723 AATTTTTACAAATAAAAATAAATTATACCTTTAAAAATTTAAATTCGTGTAGTTATACTTACAAA
66 AACTTTTAAAAATAAAAATAAATCATACATTAAAAAATTTAAATTCGTATAATCATACTTAAAAA
* * * *
173788 ACAAATTTAAATTTTTTGAAATAAAAATAAAAAATACCTTAAAATTTAAAATCGCATAATTAACC
131 ACAAATTTAAATCTTCTGAAATAAAAATAAAAAATAACTTAAAATTTAAAATCGCATAATAAACC
* * *
173853 AAAAAATAAATTTAAACTTTTTCAAAT-AAAA-AAATTATAAC-TAAAAAATTTAAACTCATATA
196 AAAAAACAAATTTAAACTTCTACAAATAAAAATAAATTATAACTTAAAAAATTTAAACTCATATA
* * *
173915 ATCATACCTAAAAACACTTTTACAAAT-AAAAATATTTTTATTTAAAATACCACTTACCTAATAT
261 ATCATACCTAAAAACACTTTCACAAATAAAAAATATTTTAATTTAAAATACCAATTACCTAATAT
*
173979 TTAAATAAAAATACACTAATGCCATAAAATATATCAAAAATTAAACTAATCTTAA
326 TTAAACAAAAATACACTAATGCCATAAAATATATCAAAAATTAAACTAATCTTAA
* * * * * *
174034 AAAT-AAAATAAATCATACCTTAAAAAAAATTTTAACTCCTATAATCAACTCAAAGAATAAATTT
1 AAATAAAAATAAATCATAAC-TAAAAAAAATTTGAACTCATATAATCAAATCAAAAAACAAATTT
* * *
174098 AGACTTTTAAAAATAAAAAGTAAATCGTACATTAAAAAATTTAAAATT-TTATAATCATA-TTCA
65 AAACTTTTAAAAATAAAAA-TAAATCATACATTAAAAAATTT-AAATTCGTATAATCATACTT-A
* ** * * **
174161 AAAAATAAATTTAAA-CTTCT-AAA-AAAAATAAATCATAATTTAAAATTTTAAACTCGTGTAAT
127 AAAAACAAATTTAAATCTTCTGAAATAAAAATAAAAAATAACTTAAAA-TTTAAAATCGCATAAT
* * **
174223 CAAACCAAAATACAAATTTAAACTTCTACAGATAAAAATAAATTATGCCTTAAAAAATTTAAACT
191 -AAACCAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATTATAACTTAAAAAATTTAAACT
*
174288 CATATAATCATATCTAAAAACACTTTCACAAATAAAAAATATTTTAATTTAAAATACCAATTACC
255 CATATAATCATACCTAAAAACACTTTCACAAATAAAAAATATTTTAATTTAAAATACCAATTACC
* *
174353 TAATATTTCAACAAAAATGCACTAATG
320 TAATATTTAAACAAAAATACACTAATG
174380 TAAGCAATCA
Statistics
Matches: 291, Mismatches: 45, Indels: 16
0.83 0.13 0.05
Matches are distributed among these distances:
374 18 0.06
375 30 0.10
376 88 0.30
377 43 0.15
378 13 0.04
379 46 0.16
380 53 0.18
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (380 bp):
AAATAAAAATAAATCATAACTAAAAAAAATTTGAACTCATATAATCAAATCAAAAAACAAATTTA
AACTTTTAAAAATAAAAATAAATCATACATTAAAAAATTTAAATTCGTATAATCATACTTAAAAA
ACAAATTTAAATCTTCTGAAATAAAAATAAAAAATAACTTAAAATTTAAAATCGCATAATAAACC
AAAAAACAAATTTAAACTTCTACAAATAAAAATAAATTATAACTTAAAAAATTTAAACTCATATA
ATCATACCTAAAAACACTTTCACAAATAAAAAATATTTTAATTTAAAATACCAATTACCTAATAT
TTAAACAAAAATACACTAATGCCATAAAATATATCAAAAATTAAACTAATCTTAA
Found at i:174526 original size:69 final size:71
Alignment explanation
Indices: 174453--174596 Score: 195
Period size: 69 Copynumber: 2.1 Consensus size: 71
174443 TCAACACTTC
* * * *
174453 TAATCAACCTAAAAAATAAATTTAAACTTATACATAT-AAAAAATCATA-CTATA-AAAATTTAA
1 TAATCAAACTAAAAAATAAATTTAAACTTATACAAATAAAAAAATAATATCT-TACAAAAGTTAA
174515 ACTCGTA
65 ACTCGTA
* *
174522 TAATCAAATTAAAAAATAAATTTAAACTTTTACAAATAAAAAAATAATATCTTACAAAAGTTAAA
1 TAATCAAACTAAAAAATAAATTTAAACTTATACAAATAAAAAAATAATATCTTACAAAAGTTAAA
*
174587 CTTGTA
66 CTCGTA
174593 TAAT
1 TAAT
174597 GATAATCAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
69 33 0.51
70 12 0.18
71 20 0.31
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (71 bp):
TAATCAAACTAAAAAATAAATTTAAACTTATACAAATAAAAAAATAATATCTTACAAAAGTTAAA
CTCGTA
Found at i:174661 original size:13 final size:13
Alignment explanation
Indices: 174643--174668 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
174633 TACTTTACAA
174643 AAAATTACTTAAT
1 AAAATTACTTAAT
174656 AAAATTACTTAAT
1 AAAATTACTTAAT
174669 TAACATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAATTACTTAAT
Found at i:174711 original size:6 final size:6
Alignment explanation
Indices: 174668--174702 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
174658 AATTACTTAA
174668 TTAACAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
1 TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
174703 TTAAAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:174997 original size:24 final size:23
Alignment explanation
Indices: 174959--175006 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
174949 ATCCTAAATT
174959 TTTTTAATTAATTTAGTTAAAAAA
1 TTTTTAATTAATTTA-TTAAAAAA
*
174983 TTTTT-ATTAATTTTATTGAAAAA
1 TTTTTAATTAA-TTTATTAAAAAA
175006 T
1 T
175007 CAACTGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTTTAATTAATTTATTAAAAAA
Done.